Pinned Repositories
amazon-ebs-autoscale
Don't run out of disk space on your EC2 instance when generating or working with large files. Automatically add EBS volumes to a filesystem mount point in response to disk utilization.
biolink-api-to-be-deleted
API for linked biological knowledge
c-world-encode
h5 helper scripts for encode/dekkerlab hi-c data
deepvariant
DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.
DRAGMAP
DRAGEN open-source mapper
ExpansionHunter
A tool for estimating repeat sizes
genome-stratifications
Stratification BED files from the Global Alliance for Genomics and Health (GA4GH) Benchmarking Team and the Genome in a Bottle Consortium. These files can be used as standard resource of BED files for use with GA4GH benchmarking tools such as hap.py to stratify true positive, false positive, and false negative variant calls based on genomic context.
hdf2tab
convert from HDF5 matrix format to txt/tab (tsv) matrix format
tab2hdf
convert from txt/tab (tsv) matrix format to HDF5 matrix format
vcf2fasta
reference fasta to diploid fasta via SNPs in VCF
blajoie's Repositories
blajoie/hdf2tab
convert from HDF5 matrix format to txt/tab (tsv) matrix format
blajoie/tab2hdf
convert from txt/tab (tsv) matrix format to HDF5 matrix format
blajoie/vcf2fasta
reference fasta to diploid fasta via SNPs in VCF
blajoie/c-world-encode
h5 helper scripts for encode/dekkerlab hi-c data
blajoie/amazon-ebs-autoscale
Don't run out of disk space on your EC2 instance when generating or working with large files. Automatically add EBS volumes to a filesystem mount point in response to disk utilization.
blajoie/biolink-api-to-be-deleted
API for linked biological knowledge
blajoie/deepvariant
DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.
blajoie/DRAGMAP
DRAGEN open-source mapper
blajoie/ExpansionHunter
A tool for estimating repeat sizes
blajoie/genome-stratifications
Stratification BED files from the Global Alliance for Genomics and Health (GA4GH) Benchmarking Team and the Genome in a Bottle Consortium. These files can be used as standard resource of BED files for use with GA4GH benchmarking tools such as hap.py to stratify true positive, false positive, and false negative variant calls based on genomic context.
blajoie/hts-specs
Specifications of SAM/BAM and related high-throughput sequencing file formats
blajoie/htslib
C library for high-throughput sequencing data formats
blajoie/igv-webapp
IGV Web App
blajoie/igv.js
Embeddable genomic visualization component based on the Integrative Genomics Viewer
blajoie/open-data-registry
A registry of publicly available datasets on AWS
blajoie/parabricks-nextflow
Accelerated genomics workflows in NextFlow
blajoie/PyVCF
A Variant Call Format reader for Python.
blajoie/signal-element-stack
stack signal (bed/bedGraph/wig) around fixed anchor (element)